ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TACTGAAGCATCAATTTTGAATTCTCTGAAATCCTTATCTTCCGATCGAACATCAATCTTTATTGCTCATCGACTCACAACTGCAATGCAGTGTGATCAGgtacgcttctgcaacttctccagaaaccatagtacgttttgaatgtcagtaaatggtgaatgttggttggtttaatcttgtctcaagtttttttttgatgattcctctttattttcag

Basic information

species	Zea mays
transcript	GRMZM2G032936_T01
intron #	14
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G032936_T01 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os06g03770.1 (Oryza sativa), 5'ss of exon 19

TACTGAAGCATCAATTTTGAATTCTCTGAAATCCTTATCTTCCGATCGAACATCAATCTTTATTGCTCATCGACTCACAACTGCAATGCAGTGTGATCAGgtacgc----ttctgcaacttctccagaaaccatagtacgttttgaatgtcagtaaatggtgaatgttggttggtttaatcttgtctcaagtttttttttgatgattcctctttattttcag
 || ||||| |||||||| |||||||||||  | || ||    || || || || ||||||||||| |||||||| |||||||||||||| |||||| ||||| ||    |  ||||| | |   |||| | | |  || |    ||  ||| |   | ||||| ||    || ||||   |   || ||  |     || |   |                
CACCGAAGCGTCAATTTTAAATTCTCTGAAGACTTTGTCCGTTGACCGTACCTCTATCTTTATTGCACATCGACTGACAACTGCAATGCAATGTGATGAGgtatgcatgttcatgcaaatacattagaa-caaaaaaacctgc--aacttcatt---ttgtgaaagtaatatgattta--ttgaactaaaaatagggattcagagtaa--------------

upper sequence: GRMZM2G032936_T01 (Zea mays), 5'ss of exon 14
lower sequence: Vv06s0004g08350.t01 (Vitis vinifera), 5'ss of exon 21

TACTGAAGCATCAATTTTGAATTCTCTGAAATCCTTATCTTCCGATCGAACATCAATCTTTATTGCTCATCGACTCACAACTGCAATGCAGTGTGATCAGgtacgcttctgcaacttctccagaaaccatagtacgttttgaatgtcagtaaatggtgaatgttggttggttta-atcttgtctcaagtttttttttgatgattcctctttattttcag
 || ||  ||   || || ||| | |||||  | ||| |     ||||||| ||||||||||| || ||| |||| |||||||| |||||||||||  |||||        | | |  |  ||  |||||  ||  |||||    |     ||  |     |||  ||  | |  | |   |  ||   ||| ||   |  |||| | ||||| |    
AACAGAGTCAGAGATATTAAATGCACTGAAGACATTAGCAAATAATCGAACTTCAATCTTTATAGCACATAGACTTACAACTGCGATGCAGTGTGACGAGgta-------actattattgtagtgaccatgctagattttgtgaatttcccaagag-----gttactttatatgcaccacattaca---tttattgcaagtattcttttttatat----

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|32933580|gb|CF038392.1|CF038392

EST:     CATCAATCTTTATTGCTCATCGACTCACAACTGCAATGCAGTGTGATCAG                         ATAATTGTTTTGGAGGATGGGAAGGTAGTAGAACAAGGACCACATGATTTT
genomic: CATCAATCTTTATTGCTCATCGACTCACAACTGCAATGCAGTGTGATCAGgtacgcttct ... ttattttcagATAATTGTTTTGGAGGATGGGAAGGTAGTAGAACAAGGACCACATGATTTT

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 252

TACTGAAGCATCAATTTTGAATTCTCTGAAATCCTTATCTTCCGATCGAACATCAATCTTTATTGCTCATCGACTCACAACTGCAATGCAGTGTGATCAGgtacgcttct ... ttattttcagATAATTGTTTTGGAGGATGGGAAGGTAGTAGAACAAGGACCACATGATTTTCTTCTGTCACAGGGTGGGCGATACGCAGAATTGTGGTATCAGCAGAACA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 315

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 331